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Showing metabocard for 6-Chloropicolinic acid (HMDB0247050)

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Record Information
Version5.0
StatusDetected but not Quantified
Creation Date2021-09-11 00:04:03 UTC
Update Date2021-09-26 22:56:30 UTC
HMDB IDHMDB0247050
Secondary Accession NumbersNone
Metabolite Identification
Common Name6-Chloropicolinic acid
Description6-CHLOROPICOLINIC ACID, also known as 6-chloropicolinate, belongs to the class of organic compounds known as pyridinecarboxylic acids. Pyridinecarboxylic acids are compounds containing a pyridine ring bearing a carboxylic acid group. 6-CHLOROPICOLINIC ACID is an extremely weak basic (essentially neutral) compound (based on its pKa). This compound has been identified in human blood as reported by (PMID: 31557052 ). 6-chloropicolinic acid is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically 6-Chloropicolinic acid is part of the human exposome. The exposome can be defined as the collection of all the exposures of an individual in a lifetime and how those exposures relate to health. An individual's exposure begins before birth and includes insults from environmental and occupational sources.
Structure
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MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0247050 (6-Chloropicolinic acid)

  Mrv1572004221604032D          

 10 10  0  0  0  0            999 V2000
    1.4289   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.4125    0.0000 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0000    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  3  1  1  0  0  0  0
  4  2  1  0  0  0  0
  5  3  2  0  0  0  0
  6  4  1  0  0  0  0
  7  5  1  0  0  0  0
  8  4  2  0  0  0  0
  8  5  1  0  0  0  0
  9  6  1  0  0  0  0
 10  6  2  0  0  0  0
M  END
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3D MOL for HMDB0247050 (6-Chloropicolinic acid)

HMDB0247050
     RDKit          3D
6-Chloropicolinic acid
 14 14  0  0  0  0  0  0  0  0999 V2000
    2.7589   -1.2441   -0.1959 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1449   -0.1830   -0.3542 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8479    0.9491   -0.7325 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7060   -0.0798   -0.1569 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0536   -1.1748    0.2213 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4065   -1.1232    0.4177 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0240    0.1089    0.2191 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2798    1.1961   -0.1548 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0962    2.7158   -0.3913 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    0.0379    1.0733   -0.3288 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.0124    1.6340    0.0174 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4577   -2.1249    0.3690 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0154   -1.9565    0.7103 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0901    0.2092    0.3596 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  1  0
  8 10  2  0
 10  4  1  0
  3 11  1  0
  5 12  1  0
  6 13  1  0
  7 14  1  0
M  END
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3D SDF for HMDB0247050 (6-Chloropicolinic acid)

  Mrv1572004221604032D          

 10 10  0  0  0  0            999 V2000
    1.4289   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.4125    0.0000 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0000    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  3  1  1  0  0  0  0
  4  2  1  0  0  0  0
  5  3  2  0  0  0  0
  6  4  1  0  0  0  0
  7  5  1  0  0  0  0
  8  4  2  0  0  0  0
  8  5  1  0  0  0  0
  9  6  1  0  0  0  0
 10  6  2  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0247050

> <DATABASE_NAME>
hmdb

> <SMILES>
OC(=O)C1=NC(Cl)=CC=C1

> <INCHI_IDENTIFIER>
InChI=1S/C6H4ClNO2/c7-5-3-1-2-4(8-5)6(9)10/h1-3H,(H,9,10)

> <INCHI_KEY>
ZLKMOIHCHCMSFW-UHFFFAOYSA-N

> <FORMULA>
C6H4ClNO2

> <MOLECULAR_WEIGHT>
157.55

> <EXACT_MASS>
156.9930561

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
14

> <JCHEM_AVERAGE_POLARIZABILITY>
13.635646712166182

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
6-chloropyridine-2-carboxylic acid

> <ALOGPS_LOGP>
0.60

> <JCHEM_LOGP>
1.623228476

> <ALOGPS_LOGS>
-1.04

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.816989614634197

> <JCHEM_PKA_STRONGEST_BASIC>
0.4883540379432666

> <JCHEM_POLAR_SURFACE_AREA>
50.190000000000005

> <JCHEM_REFRACTIVITY>
36.6514

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.43e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
6-chloropicolinic acid

> <JCHEM_VEBER_RULE>
0

$$$$
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3D-SDF for HMDB0247050 (6-Chloropicolinic acid)

HMDB0247050
     RDKit          3D
6-Chloropicolinic acid
 14 14  0  0  0  0  0  0  0  0999 V2000
    2.7589   -1.2441   -0.1959 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1449   -0.1830   -0.3542 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8479    0.9491   -0.7325 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7060   -0.0798   -0.1569 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0536   -1.1748    0.2213 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4065   -1.1232    0.4177 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0240    0.1089    0.2191 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2798    1.1961   -0.1548 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0962    2.7158   -0.3913 Cl  0  0  0  0  0  0  0  0  0  0  0  0
    0.0379    1.0733   -0.3288 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.0124    1.6340    0.0174 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4577   -2.1249    0.3690 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0154   -1.9565    0.7103 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0901    0.2092    0.3596 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  1  0
  8 10  2  0
 10  4  1  0
  3 11  1  0
  5 12  1  0
  6 13  1  0
  7 14  1  0
M  END
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PDB for HMDB0247050 (6-Chloropicolinic acid)

HEADER    PROTEIN                                 22-APR-16   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   22-APR-16         0                                  
HETATM    1  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.000  -0.000   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    7 Cl   UNK     0      -1.334  -0.770   0.000  0.00  0.00          Cl+0
HETATM    8  N   UNK     0       0.000   1.540   0.000  0.00  0.00           N+0
HETATM    9  O   UNK     0      -0.000   4.620   0.000  0.00  0.00           O+0
HETATM   10  O   UNK     0       2.667   4.620   0.000  0.00  0.00           O+0
CONECT    1    2    3                                                       
CONECT    2    1    4                                                       
CONECT    3    1    5                                                       
CONECT    4    2    6    8                                                  
CONECT    5    3    7    8                                                  
CONECT    6    4    9   10                                                  
CONECT    7    5                                                            
CONECT    8    4    5                                                       
CONECT    9    6                                                            
CONECT   10    6                                                            
MASTER        0    0    0    0    0    0    0    0   10    0   20    0
END
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3D PDB for HMDB0247050 (6-Chloropicolinic acid)

COMPND    HMDB0247050
HETATM    1  O1  UNL     1       2.759  -1.244  -0.196  1.00  0.00           O  
HETATM    2  C1  UNL     1       2.145  -0.183  -0.354  1.00  0.00           C  
HETATM    3  O2  UNL     1       2.848   0.949  -0.733  1.00  0.00           O  
HETATM    4  C2  UNL     1       0.706  -0.080  -0.157  1.00  0.00           C  
HETATM    5  C3  UNL     1      -0.054  -1.175   0.221  1.00  0.00           C  
HETATM    6  C4  UNL     1      -1.406  -1.123   0.418  1.00  0.00           C  
HETATM    7  C5  UNL     1      -2.024   0.109   0.219  1.00  0.00           C  
HETATM    8  C6  UNL     1      -1.280   1.196  -0.155  1.00  0.00           C  
HETATM    9 CL1  UNL     1      -2.096   2.716  -0.391  1.00  0.00          CL  
HETATM   10  N1  UNL     1       0.038   1.073  -0.329  1.00  0.00           N  
HETATM   11  H1  UNL     1       3.012   1.634   0.017  1.00  0.00           H  
HETATM   12  H2  UNL     1       0.458  -2.125   0.369  1.00  0.00           H  
HETATM   13  H3  UNL     1      -2.015  -1.956   0.710  1.00  0.00           H  
HETATM   14  H4  UNL     1      -3.090   0.209   0.360  1.00  0.00           H  
CONECT    1    2    2
CONECT    2    3    4
CONECT    3   11
CONECT    4    5    5   10
CONECT    5    6   12
CONECT    6    7    7   13
CONECT    7    8   14
CONECT    8    9   10   10
END
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SMILES for HMDB0247050 (6-Chloropicolinic acid)

OC(=O)C1=NC(Cl)=CC=C1
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INCHI for HMDB0247050 (6-Chloropicolinic acid)

InChI=1S/C6H4ClNO2/c7-5-3-1-2-4(8-5)6(9)10/h1-3H,(H,9,10)
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View in JSmolView NMR AssignmentsView Stereo Labels
Synonyms
ValueSource
6-CHLOROPICOLINateGenerator
6-Chloropicolinic acidMeSH
Chemical FormulaC6H4ClNO2
Average Molecular Weight157.55
Monoisotopic Molecular Weight156.9930561
IUPAC Name6-chloropyridine-2-carboxylic acid
Traditional Name6-chloropicolinic acid
CAS Registry NumberNot Available
SMILES
OC(=O)C1=NC(Cl)=CC=C1
InChI Identifier
InChI=1S/C6H4ClNO2/c7-5-3-1-2-4(8-5)6(9)10/h1-3H,(H,9,10)
InChI KeyZLKMOIHCHCMSFW-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as pyridinecarboxylic acids. Pyridinecarboxylic acids are compounds containing a pyridine ring bearing a carboxylic acid group.
KingdomOrganic compounds
Super ClassOrganoheterocyclic compounds
ClassPyridines and derivatives
Sub ClassPyridinecarboxylic acids and derivatives
Direct ParentPyridinecarboxylic acids
Alternative Parents
Substituents
  • Pyridine carboxylic acid
  • 2-halopyridine
  • Aryl chloride
  • Aryl halide
  • Heteroaromatic compound
  • Carboxylic acid derivative
  • Carboxylic acid
  • Monocarboxylic acid or derivatives
  • Azacycle
  • Organic nitrogen compound
  • Organooxygen compound
  • Organonitrogen compound
  • Organochloride
  • Organohalogen compound
  • Hydrocarbon derivative
  • Organic oxide
  • Organopnictogen compound
  • Organic oxygen compound
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic compounds
External DescriptorsNot Available
Ontology
Physiological effectNot Available
Disposition
Biological locationSource
ProcessNot Available
RoleNot Available
Physical Properties
StateNot Available
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
Predicted Chromatographic Properties
Spectra
Biological Properties
Cellular LocationsNot Available
Biospecimen Locations
  • Blood
Tissue LocationsNot Available
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected but not QuantifiedNot QuantifiedNot SpecifiedNot SpecifiedNormal details
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound20812
PDB IDNot Available
ChEBI IDNot Available
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. Barupal DK, Fiehn O: Generating the Blood Exposome Database Using a Comprehensive Text Mining and Database Fusion Approach. Environ Health Perspect. 2019 Sep;127(9):97008. doi: 10.1289/EHP4713. Epub 2019 Sep 26. [PubMed:31557052 ]